Stinson came into conflict with Captain Sisko when Sisko took command of Defiant with orders from Starfleet Command to make contact with the Dominion and determine if the Typhon Pact had attempted to negotiate materials for their own quantum slipstream drive. Captain Sisko openly and blatantly challenged Stinson's negative behavior in pursuit of his duties of first office. Captain Sisko chose not to document the issue for formal disciplinary action if Stinson decided to put his resentment aside and perform his duties as a Starfleet officer. Captain Sisko had to remind Stinson of his expert knowledge of the Dominion, the Founders, the Jem'Hadar and his role as the Emissary of the Prophets. (ST - Typhon Pactnovel: Raise the Dawn)